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[191076_s_at] GABA receptor beta subunit

Description K10D6.1 /REP_DB=WormBase Gene ID /WP=CE06175 /TR=Q21420 /GB=CAA98509.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=GABA receptor beta subunit
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 22      4grp_high_8_8 > 04      6grp_highest_nonorm > 80      6grp_total > 22      4grp_total > 12      6grp_highest_sub > 02      6grp_high1_sub > De      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 341
1 2 3 4 range
A 225.3
(-1.3)
P 		163.8
(-2.8)
P 		156.9
(-3)
M 		405.2
(3)
P 		248
B 257.4
(-0.7)
P 		210.7
(-1.9)
P 		171.9
(-3)
P 		391.4
(3)
P 		220
C 290.7
(-0.3)
P 		154.8
(-2.7)
P 		139.1
(-3)
P 		479.9
(3)
P 		341
avr 257.8
(-0.7) 		176.4
(-2.5) 		156
(-3) 		425.5
(3) 		270

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 189
1 2 3 4 5 6 range
A 173.9
(-1.2)
P 		195.3
(-0.5)
P 		297.7
(3)
P 		120.1
(-3)
P 		193.9
(-0.5)
P 		157.4
(-1.7)
P 		178
B 268.3
(3)
P 		204.8
(0.6)
P 		174.1
(-0.5)
P 		200
(0.4)
P 		141.1
(-1.8)
P 		108.6
(-3)
P 		160
C 170.2
(-0.8)
P 		279.5
(3)
P 		153.2
(-1.4)
P 		199
(0.2)
P 		108.3
(-3)
P 		136.2
(-2)
P 		171
avr 204.1
(1.5) 		226.5
(3) 		208.3
(1.8) 		173
(-0.5) 		147.8
(-2.1) 		134.1
(-3) 		92
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 61
1 2 3 4 range
A 82
(3)
P 		35.5
(-3)
P 		41
(-2.3)
M 		59.3
(0.1)
P 		47
B 82.1
(2.8)
P 		52
(-1.3)
P 		39.8
(-3)
P 		83.4
(3)
P 		44
C 96.2
(3)
P 		44.5
(-3)
P 		48.5
(-2.5)
P 		80.9
(1.2)
P 		52
avr 86.8
(3) 		44
(-2.9) 		43.1
(-3) 		74.5
(1.3) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 63
1 2 3 4 5 6 range
A 32.1
(-2.8)
P 		69.5
(3)
P 		64.8
(2.3)
P 		30.5
(-3)
P 		58.5
(1.3)
P 		38.3
(-1.8)
P 		39
B 93.3
(3)
P 		68.2
(0.1)
P 		42.3
(-2.8)
P 		53
(-1.6)
P 		57.3
(-1.1)
P 		40.5
(-3)
P 		53
C 63.1
(0.4)
P 		85.3
(3)
P 		39
(-2.5)
P 		40
(-2.4)
P 		35
(-3)
P 		45.6
(-1.7)
P 		50
avr 62.8
(0.9) 		74.3
(3) 		48.7
(-1.6) 		41.2
(-3) 		50.3
(-1.4) 		41.5
(-2.9) 		33
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 191076_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14089
Sequence Type Exemplar sequence
Representative Public ID K10D6.1 NCBI
Target Description K10D6.1 /REP_DB=WormBase Gene ID /WP=CE06175 /TR=Q21420 /GB=CAA98509.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=GABA receptor beta subunit
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_073440(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073440 NCBI Caenorhabditis elegans K10D6.1 (K10D6.1) mRNA, complete cds. 11/11 None
SNAP00000039396 ENSEMBL cdna:SNAP chromosome:CEL140:V:11193871:11195924:1 11/11 None
GENEFINDER00000039404 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11193871:11195920:1 11/11 None
K10D6.1 ENSEMBL cdna:known chromosome:CEL140:V:11193871:11196206:1 gene:K10D6.1 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:11192309-11195924(+) 100.0 100.0
Public Domain and Genome References
Gene Title GABA receptor beta subunit
Ensembl K10D6.1
Entrez Gene 179547 Entrez gene
SwissProt Q21420 EMBL-EBI
WormBase CE37537 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
6811 ion transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
45211 postsynaptic membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4890 GABA-A receptor activity inferred from electronic annotation QuickGO AmiGO
5230 extracellular ligand-gated ion channel activity inferred from electronic annotation QuickGO AmiGO
30594 neurotransmitter receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA98509 Hypothetical protein K10D6.1 [Caenorhabditis elegans] ref|NP_505841.2| K10D6.1 [Caenorhabditis elegans] 0.0
blast CAE75188 Hypothetical protein CBG23132 [Caenorhabditis briggsae] 0.0
blast CAA94228 Hypothetical protein C53D6.3 [Caenorhabditis elegans] ref|NP_501567.1| C53D6.3 [Caenorhabditis elegans] 1.0E-150
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 8.5E-12
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 8.3E-8
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.3E-73
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505841.2 5 10-29,264-286,292-314,326-348,419-441
K10D6.1 5 10-29,264-286,292-314,326-348,419-441
SNAP00000039396 5 10-29,264-286,292-314,326-348,419-441
GENEFINDER00000039404 5 10-29,264-286,292-314,326-348,419-441
Sequence
Target Sequence 
>C. ELEGANS:191076_S_AT
gcaagcatatctcccaacatatcttacaatttttatcagctggatctcattctctctcgg
aacgaaagcgatgcctgctcgtacaatgcttggtgtaaatgctctcttagcaatgatatt
tcaattcggaaatattatgagaaatcttcctcgtgtctcttatgtgaaagcaattgacgt
ctggatgcttgtttccatgacatttatttttttatcactactcgaattggctatcgttgg
atataaaacaaaaaacgaggagggatcgaaaaagaaatgtcctcataagaaattgttgga
caatttcgaagcatcgcctgcaggattatgtcgatatgagaaaagattcatgttaccagt
tgaacgacgttctgcacgatggggaggaattataaggtttcaagtattccaagacttctg
gaactggagccctgaaaaaattgatcgggtttcggcaatcatgtttcccgcttgttttgc
tattttcaatatcgtctactggtcatactactacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAAGCATATCTCCCAACATATCTT 211 321 966 Antisense
ATCTCATTCTCTCTCGGAACGAAAG 595 21 1009 Antisense
GAACGAAAGCGATGCCTGCTCGTAC 314 347 1025 Antisense
ATGCTTGGTGTAAATGCTCTCTTAG 349 43 1051 Antisense
TCTTCCTCGTGTCTCTTATGTGAAA 640 617 1110 Antisense
GACGTCTGGATGCTTGTTTCCATGA 693 377 1141 Antisense
ATCACTACTCGAATTGGCTATCGTT 201 27 1179 Antisense
GACAATTTCGAAGCATCGCCTGCAG 245 365 1264 Antisense
GAACGACGTTCTGCACGATGGGGAG 256 347 1327 Antisense
GGTTTCGGCAATCATGTTTCCCGCT 615 505 1413 Antisense
TCGTCTACTGGTCATACTACTACAA 194 603 1457 Antisense
Sequence Source Affymetrix Proprietary Database